issue 2) and 3) are probably the same as bug #388257 “Inkscape 0.47Pre: PDF/PS Export 'Text to Paths' gives inconsistent results”: <https://bugs.launchpad.net/inkscape/+bug/388257>
Could you attach a same file (SVG + PDF) for issue 1) object ordering/transparency? And on which platform did you test which Inkscape 0.47pre version?
issue 2) and 3) are probably the same as bug #388257 “Inkscape 0.47Pre: PDF/PS Export 'Text to Paths' gives inconsistent results”: /bugs.launchpad .net/inkscape/ +bug/388257>
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Could you attach a same file (SVG + PDF) for issue 1) object ordering/ transparency? And on which platform did you test which Inkscape 0.47pre version?